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gmoviz

Seamless visualization of complex genomic variations in GMOs and edited cell lines

Bioconductor version: 3.23 · Package version: 1.24.0

Genetically modified organisms (GMOs) and cell lines are widely used models in all kinds of biological research. As part of characterising these models, DNA sequencing technology and bioinformatics analyses are used systematically to study their genomes. Therefore, large volumes of data are generated and various algorithms are applied to analyse this data, which introduces a challenge on representing all findings in an informative and concise manner. `gmoviz` provides users with an easy way to visualise and facilitate the explanation of complex genomic editing events on a larger, biologically-relevant scale.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("gmoviz")

Details

MaintainerKathleen Zeglinski <kathleen.zeglinski@csl.com.au>
AuthorKathleen Zeglinski [cre, aut], Arthur Hsu [aut], Monther Alhamdoosh [aut] (ORCID: <https://orcid.org/0000-0002-2411-1325>), Constantinos Koutsakis [aut]
LicenseGPL-3
Downloads rank317
Source branchRELEASE_3_23
biocViewsCoverage, GeneticVariability, GenomicVariation, Sequencing, Software, Visualization

Documentation

Download

Dependencies

Depends: circlize, GenomicRanges, graphics, R (>= 4.0)

Imports: grid, gridBase, Rsamtools, ComplexHeatmap, BiocGenerics, Biostrings, Seqinfo, methods, GenomicAlignments, GenomicFeatures, IRanges, rtracklayer, pracma, colorspace, S4Vectors

Suggests: testthat, knitr, rmarkdown, pasillaBamSubset, BiocStyle, BiocManager, GenomeInfoDb